An integrated metabolic pathway analysis based on metabolic signal flow diagram and cellular energetics for Saccharomyces cerevisiae

Huidong Shi, Kazuyuki Shimizu

Research output: Contribution to journalArticle

7 Citations (Scopus)

Abstract

Noting that a metabolic signal flow diagram-based modelling approach developed by Endo and Inoue (Endo and Inoue, 1976) is restricted to a linear system applicable over the range of linearity of interest, we attempted to overcome such a restriction, and developed an integrated modelling approach by incorporating an energetic model into MSFD. The proposed approach was applied to continuous cultivation of Saccharomyces cerevisiae. The problem was formulated in terms of a flow network that has as its objective maximal ATP synthesis. The metabolic conversion coefficients Cij in the metabolic signal flow diagram can be expressed as a function of z, the fraction of the total carbon flux into the Embden-Meyerhof-Parnas pathway. The resulting model equations were used for analysis of the directions of carbon fluxes and the degree of activation of a particular pathway or reaction loop in S. cerevisiae cultivation, in which the physiological state and the changes in fluxes of the main metabolic pathways in the viable cells can be distinguished in terms of the signs of the metabolic coefficients.

Original languageEnglish (US)
Pages (from-to)275-280
Number of pages6
JournalJournal of Fermentation and Bioengineering
Volume83
Issue number3
DOIs
StatePublished - Jan 1 1997
Externally publishedYes

Fingerprint

Carbon Cycle
Metabolic Networks and Pathways
Yeast
Saccharomyces cerevisiae
Fluxes
Glycolysis
Carbon
Adenosine Triphosphate
Adenosinetriphosphate
Linear systems
Chemical activation
Direction compound

Keywords

  • Saccharomyces cerevisiae
  • cellular energetics
  • continuous cultivation
  • metabolic pathway analysis
  • metabolic signal flow diagram

ASJC Scopus subject areas

  • Biotechnology
  • Applied Microbiology and Biotechnology

Cite this

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N2 - Noting that a metabolic signal flow diagram-based modelling approach developed by Endo and Inoue (Endo and Inoue, 1976) is restricted to a linear system applicable over the range of linearity of interest, we attempted to overcome such a restriction, and developed an integrated modelling approach by incorporating an energetic model into MSFD. The proposed approach was applied to continuous cultivation of Saccharomyces cerevisiae. The problem was formulated in terms of a flow network that has as its objective maximal ATP synthesis. The metabolic conversion coefficients Cij in the metabolic signal flow diagram can be expressed as a function of z, the fraction of the total carbon flux into the Embden-Meyerhof-Parnas pathway. The resulting model equations were used for analysis of the directions of carbon fluxes and the degree of activation of a particular pathway or reaction loop in S. cerevisiae cultivation, in which the physiological state and the changes in fluxes of the main metabolic pathways in the viable cells can be distinguished in terms of the signs of the metabolic coefficients.

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